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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAGAAGAAGTTAAACAGCATAAAACAGGAGATAGTATTTGGACTGTTTTGAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataagttttaacctgatgtggaatacttgtttcagttcttttcgtagctgctgttcaccttcacaatttctgcagacttcagagtgctatatgcttctattttatgtgtaacaagtacttttatgggcatttgcag

Basic information

species Oryza sativa
transcript LOC_Os07g12830.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g12830.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G152438_T02 (Zea mays), 5'ss of exon 5
CTAGAAGAAGTTAAACAGCATAAAACAGGAGATAGTATTTGGACTGTTTTGAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataagttttaacctgatgtggaatacttgtttcagttcttttcgtagctgctgttcacct-tcacaatttctgcagacttcagagtgctat-atgcttctattttatgtgtaacaagtacttttatgggcatttgcag
 | ||||| ||||| ||||| ||| |||||||| |||||||||| ||| | ||||| || ||||||||||||||||| ||||||||||||||||| ||||||||||||| |||| |      |  |   |  | |||||||          | |   ||||| | | ||||||      ||  |||    ||   || || | | |                                      
TTGGAAGAGGTTAAGCAGCACAAAGCAGGAGATTGTATTTGGACAGTTCTCAAAGGCCGCGTGTACAACATTGCTCCATACATGAAATTTCATCCTGGAGgtaaccata-gtttcagttcattcagagttgttagtttcag----------aaccagtgttctcatctcacaaggc--acaaccttttctgtatcatgatacatttgcag----------------------------------

upper sequence: LOC_Os07g12830.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G167946_T01 (Zea mays), 5'ss of exon 1
CTAGAAGAAGTTAAACAGCATAAAACAGGAGATAGTATTTGGACTGTTTTGAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataagttttaacctgatgtggaatacttgtttcagttcttttcgtagctgctgttcacct-tcacaatttctgcagacttcagagtgctata-tgcttctattttatgtgtaacaagtacttttatgggcatttgcag
                                                         || ||||||||||||||||||||||||||||||||||| |||||||| | || |||| ||  |  |  |   |  |  |||    |   |||  | |  |||||| | | |||||| |     |   ||    ||  |||  | | | |   | |  || | ||  |   |||  |   ||||||||
--------------------------------------------------------CCGCGTGTACAACATTGCTCCGTACATGAAATTTCATCCTGGAGgtaatctta-gtttcaatttattcagacttgttctttttgagt---ttcagaaccactgttctcatctcacaagtggca-acctttttctgtattatggtacattttcctaacctgaatcatat---tttgggttgatttgcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86252073|gb|CI055810.1|CI055810
EST:     GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
EST: gi|33680256|gb|CF308495.1|CF308495
EST:     GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTC
genomic: GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagG-AGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTC
EST: gi|88491319|gb|CI428591.1|CI428591
EST:     CAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: CAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
EST: gi|86420762|gb|CI056751.1|CI056751
EST:     GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
EST: gi|3762892|gb|AU029644.1|AU029644
EST:     GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
EST: gi|88990983|gb|CI108370.1|CI108370
EST:     GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: GAAAGGTCGTGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
EST: gi|88831337|gb|CI082147.1|CI082147
EST:     TGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAG                         GAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA
genomic: TGTGTACAACATTGCTCCGTACATGAAATTTCATCCGGGAGgtaaccataa ... gcatttgcagGAGTTGATATGCTTATGAAGGCTGCTGGAAAAGACTCGACCGCTCTGTTCA